Gene detail

Detailed information of ENSOJPP00000038284.1 in Anthopleura xanthogrammica

Genomic Location: chr4:4246337...4255777
NR annotation: XP_031551610.1, rab GTPase-binding effector protein 1-like [Actinia tenebrosa]
Species Anthopleura xanthogrammica · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

ENSOJPT00000044382

gaaaattcttttttaaagtCAAAGTTGAGAGCTGTGGAGGAAAGGTTAAAGGGTTTGGAAAAATATACTGTGAACAAGGAATCTGGTTTAAGCCTGGAGGAACTACAAGAAAAGGCAAGTGTTTATTCATTAAGTTTTGACTTTCTTTATGGCTCAAGGTTAAGTTCTAGGTTAACAGCTATGATGTTATGATGTTTAGGTAAAAGATTTAAATCAATATTTGGAATCTGAACGAGCATCTAGAACAGACCTTGAGATGTATGTAGCTGTTCTCAATACACAGAAAGGTGTCTTGCAAGAAGATTCTGACAAATTAAGGAAGGAACTTCATAATGTTTGTAGACTTCTCGAACAAGAGAAAACAGCTCATCGTGAACTGAAGCAAACCTGGCAAATGGCAAACGATCAGTTCCTGGAGAATCAACTGATGCAGAATGACAAGATGACGTTGATGTGGAGTATCATGACCAAGGAACAAAAACAGAAGGTCAAAGAAGAACGACAGAAGTTAGTAACCAAAAGACCTAAGACTGGTGAACTGGTAGATCTCACTACGCCACCTCTTACTCCTGTTTCGTCTGTAGAGAAAGCCACTGATGTCGCTCTGTCGTTACCAGACTCAGGGTCACACCTCTCCGATATCTCAACTATATCCTGTACCAATTCCTTCACGTCCATCGTTTCCGACAGGGAAGAAAGCAAcgacgaagaagaagagggCGGTGATGATAAACAAAAGGGTAGACAACGGTCTCATTCAGACTCGGGTTCTTTGGAAGTTAGTGACATCGACGTCTCCAGAGCCAAGTCAGCAGAAAACCTCAGCCCACCCCCCTTGGCCGTGCAGGAAAAACCAGACGCGGAGGCTATCAGACATAGCCCCTTACTGGACTTGGAACCAAGACCGCGTACACCCAGTAAAGGAAAGATTGATTGGGGGGTTTTCCAGGAAGAGGTCAAAGTGTTACACCAAAGCGAGACAAACAGGTCGTGTGCCATGTGCAGTAACTACGAGAAACAGTTACAAAAGGTGGAAGCCGAGagacaaaaactgaaaaacctGTCCTCTAATCTGCAGATAGCTCTGGAGCACGAGAAAaaaGCTTTATTCGAAGAACAGAAGCTGCGCAGTCGTCTAGAGCAGAGTGTAGCTCACGCGGGTCAGGACGCACAGACACAACTCAATGAACATACTGACATGTTGAGTAAACTCGATCAGATACTAGTGGACGTACAAAGAAATTATGCTGCTACTAGAAAAGAAGCCTCTGCGCAAATAGAAAAGTTAACTGTATCAAGAGATCAACTGAAGGAAGAGTTAAATCGTCTACGGTCCGAGTATAGTGCCATGCAGGACTCCGCACTTCAACAACTCAGCCAGATGGACTCAGACGCGCGAGTAACAGAAATGAGAGAACAGTTGATGCAAATCCGATCTGCAAGTGAAGGAACGGAGGAAAAGTTACGGAGTGAGATTGCCTTCTTGAAAGATAGAGCAATAGCCGAACAGATGAATAAAGACAGCATGGAGGAGATGTTCCAGGCTGATGTAGAAAGCTGCAAAATGGATCAAGGTAAGCTGGCTGAGGAActtagaaaagaaaggaaggaaaaacaagAGgttgaaacaaaattacaacaaTCAGATCAAATGCTACGAAATATTGAAGCCAAATCGAAAACAGTCATCATTGCACTAAGAGGGCAACTAGAGGAAGCAAGCGAGGAAAAGAAAAAACtggatgatgaaatgaaaacattaagAAATCAGTTTCAGTCGATGACTTCTCAGCTGAATGAAAGCGAAACTGTTCAAAGAGACTTTGTCAAGTTATCACAATCGTTACAGGTGCAAATAGCGAAAATACAGGAATCAGAAGAGGACGTTCGCTGGGAGCACAAGGATGATGTTCATCAATGTCACAAATGTAATAAACCATTAGCAAACAATAAAGATAAAGTCCACTGTCATCACTGTGGAAAGATCTTTTGCGAAGCATGTCGATACAAGGCCATCAATTCATCCGTCACGGGACGAGCTCACCAAGTCTGTGACTTGTGTCACGCAATCTTAAGTAAAGACCCAAAAGCTTTGGTAAACGACATCAGCGATGGTGTCAGGTAATACAGAAGAGTATATAGGCATGAACTCATTTTCTAATTggtttttattctaatcacgTGACATGATTACGTCATAGCAATATCGGTAATACTAACGTACCCGACAGGGTCAGAATCAGAATTAAGGTATAAAATGACCACCAATATCAAAATCCGTTGTCATGGAAATAGTCGCTAACATACGTTACGAACGTGGCGTGACGTGACGTTACTGAACACTGATTGGTTGAGCACTTAACTCGCGTGAAGTGATTGGTAACTCCGTACAGTGACGGTACCGTGACATTTGACGCTGATCCAAAATTTAATTTGTGATCGAAATATTATGCgtattattttcccatttcaaaccatgtgtcattcacTAGAGTATCATGAGAATGACACCTGATCTGAAATGGGGGAAAATTACGCGCCCAATTCTAAAGACGTCAATTGTACCATTGACACTTAAATAATCATGATTTGATGGTAACGAACTTAACTATGGTAATTGAAAATTCTAAAAAGACTACTAATTCAAGAaattaatagacccctttcacgtgatgtcaaagcagctctatttaaaggacaaaaaaaaaagaatttcaatctctcgagaattggaacctattgttttgttctccaaactgagctgcattccgacgtgctgccaAGGGGTCTGTATATACTCACTCATACATGATGCCCCTTTGACAGGAGTGATAGAAACGTGTATATCCACtcctattgttttattaagacaatttgaaaaaaatatactctGCATAAAATACGTACGTGGCACAGAGCCCAACActatattttatgttttgatggttttattggtaaaa

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
O35550	Rab GTPase-binding effector protein 1 OS=Rattus norvegicus OX=10116 GN=Rabep1 PE=1 SV=1
Q15276	Rab GTPase-binding effector protein 1 OS=Homo sapiens OX=9606 GN=RABEP1 PE=1 SV=2
O35551	Rab GTPase-binding effector protein 1 OS=Mus musculus OX=10090 GN=Rabep1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004177 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03528 all species →	Rabaptin	Rabaptin	Coiled-coil	Interproscan
PF01363 all species →	FYVE	FYVE zinc finger	Domain	Interproscan
PF09311 all species →	Rab5-bind	Rabaptin-like protein	Coiled-coil	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000306 all species →	Domain	FYVE zinc finger	Interproscan
IPR003914 all species →	Family	Rabaptin	Interproscan
IPR018514 all species →	Domain	Rabaptin coiled-coil domain	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR017455 all species →	Domain	Zinc finger, FYVE-related	Interproscan
IPR015390 all species →	Domain	Rabaptin, GTPase-Rab5 binding domain	Interproscan
IPR011011 all species →	Homologous_superfamily	Zinc finger, FYVE/PHD-type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR31179 all species →	RAB GTPASE-BINDING EFFECTOR PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0046872 all species →	Molecular Function	metal ion binding	Interproscan
GO:0005096 all species →	Molecular Function	GTPase activator activity	Interproscan
GO:0006897 all species →	Biological Process	endocytosis	Interproscan
GO:0043231 all species →	Cellular Component	intracellular membrane-bounded organelle	Interproscan
GO:0008083 all species →	Molecular Function	growth factor activity	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K12480	RABEP1; Rab GTPase-binding effector protein 1	-	Membrane trafficking	ko04131	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Co-expression network

Genes whose expression across the transcriptome samples of Anthopleura xanthogrammica tracks this one. Counts are over the whole network; the network view itself draws at most 100 partners per query gene (CNIDO_NET_TOP_K), so a hub gene can show fewer edges than the number below.

No co-expression network has been built for this species, so this gene has no partners to show. Networks are available for the species listed on the Network Analysis page.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Anthopleura xanthogrammica, and in which cell types it is a marker. Expression is stored per cell, so the violin plot and the cell-type means are computed in the viewer — open a dataset to see them.

No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.

Epigenetic marks

Chromatin and DNA-methylation data covering this gene. Peak calls are listed per sample with the genomic region the peak falls in; DNA methylation is listed as sample availability only, because those tables are queried by the DNA Methylation page itself.

No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.

What you can do with this gene

Every tool below opens with this gene already entered, so you land on the analysis rather than on an empty form. Links open in a new tab.

Analysis	What it does	Status
Primer design	Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.	template found	open →
BLAST	Search this gene’s sequence against the CnidoSite BLAST databases. The query is filled in and the species’ database is preselected — press Run to start.	template found	open →
Expression heatmap	Draw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it.	no expression matrix	–
Gene family / orthogroup	Look this gene up in the single-copy orthogroups built from the high-quality cnidarian genomes, and see which other species carry an orthologue.		open →
Gene set analysis	Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.		open →